Foxj3 MGI Mouse Gene Detail - MGI:2443432

Symbol

Foxj3
Name

forkhead box J3
Synonyms

C330039G02Rik, Fhd6, mKIAA1041

Feature Type

protein coding gene
IDs

MGI:2443432
NCBI Gene: 230700
Alliance

genome feature page
Transcription Start Sites

9 TSS

Sequence Map

Chr4:119396858-119486316 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 55.43 cM
Mapping Data

2 experiments

SNPs within 2kb

1773 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2443432	protein coding gene	Chr4:119394201-119486316 (+)
129S1/SvImJ	ENSMUSG00200011859	protein coding gene	Chr4:113302164-113394301 (+)
A/J	ENSMUSG00195030637	protein coding gene	Chr4:114544569-114636827 (+)
AKR/J	ENSMUSG00220020927	protein coding gene	Chr4:113905837-113997969 (+)
BALB/cJ	ENSMUSG00180042095	protein coding gene	Chr4:112609871-112701988 (+)
C3H/HeJ	ENSMUSG00175022379	protein coding gene	Chr4:113623035-113715137 (+)
C57BL/6NJ	ENSMUSG00215015481	protein coding gene	Chr4:114732201-114824345 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0026403	protein coding gene	Chr4:110089659-110185941 (+)
CAST/EiJ	ENSTCUG00005042442	protein coding gene	Chr4:113426147-113513275 (+)
CBA/J	ENSMUSG00210051663	protein coding gene	Chr4:113229526-113321625 (+)
DBA/2J	ENSMUSG00185045242	protein coding gene	Chr4:114779546-114871798 (+)
FVB/NJ	ENSMUSG00205017868	protein coding gene	Chr4:112702083-112794355 (+)
JF1/MsJ	ENSUMUG00000014230	protein coding gene	Chr4:114685131-114778136 (+)
LP/J	ENSMUSG00230041949	protein coding gene	Chr4:118119913-118212035 (+)
NOD/ShiLtJ	ENSMUSG00190039030	protein coding gene	Chr4:112610194-112702313 (+)
NZO/HlLtJ	ENSMUSG00225015173	protein coding gene	Chr4:123663276-123755399 (+)
PWK/PhJ	ENSLUMG00010039192	protein coding gene	Chr4:112102204-112195042 (+)
SPRET/EiJ	ENSMSPG00010036216	protein coding gene	Chr4:114189068-114276045 (+)
WSB/EiJ	ENSIUOG00005037378	protein coding gene	Chr4:112919572-113011819 (+)

Human Ortholog

FOXJ3, forkhead box J3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

FOXJ3, forkhead box J3
Links

HGNC:29178

NCBI Gene ID: 22887

UniProt: Q9UPW0
Chr Location

1p34.2; chr1:42176535-42335913 (-) GRCh38

MGI Vertebrate Homology

Foxj3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: FOXJ3
Gene Tree

Foxj3

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Phenotype Summary

20 phenotypes from 3 alleles in 3 genetic backgrounds
24 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

37
Chemically induced (other)

2
Endonuclease-mediated

6
Gene trapped

24
Radiation induced

1
Targeted

4
Genomic Mutations

4 involving Foxj3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

58 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice have an abnormal skeletal muscle fiber type ratio in males as well as defects in muscle regeneration following injury.

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All GO Annotations

19
GO References

7

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

921
Tissues

247
cDNA Data

76
Literature Summary

15

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase foxj3

ZFIN foxj3

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All Sequences

76
RefSeq

12
UniProt

7
CCDS

CCDS18585.1, CCDS71462.1

Ensembl

ENSMUSG00000032998 (Evidence)
NCBI Gene

230700

			Length	Strain/Species	Flank
genomic	230700	NCBI Gene Model \| MGI Sequence Detail	89459	C57BL/6J	± kb
transcript	NM_001357177	RefSeq \| MGI Sequence Detail	5677	C57BL/6
polypeptide	Q8BUR3	UniProt \| EBI \| MGI Sequence Detail	623	Not Applicable

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UniProt

7 Sequences
Protein Ontology

PR:000007630 forkhead box protein J3

(term hierarchy)
InterPro Domains

IPR045912 Forkhead box protein J2/3-like

IPR001766 Fork head domain

IPR018122 Fork head domain conserved site1

IPR030456 Fork head domain conserved site 2

IPR036390 Winged helix DNA-binding domain superfamily

IPR036388 Winged helix-like DNA-binding domain superfamily

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All nucleic 84

cDNA 76

Primer pair 7

Other 1

Antibodies 1

Microarray probesets 6

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MGI:891992

Summaries

All 66

Developmental Gene Expression 15

Gene Ontology 7

Phenotypes 24
Earliest

J:39656 Farrington SM, et al., Winged-helix, Hedgehog and Bmp genes are differentially expressed in distinct cell layers of the murine yolk sac. Mech Dev. 1997 Mar;62(2):197-211
Latest

J:385405 Hermant C, et al., TBP regulates transposable element expression in early mouse embryos. EMBO J. 2026 May;45(9):3073-3101

TSS for Foxj3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr38738	Chr4:119396337-119396348 (+)	-515 bp
Tssr38739	Chr4:119396849-119396895 (+)	14 bp
Tssr38740	Chr4:119396913-119396924 (+)	61 bp
Tssr38741	Chr4:119397686-119397696 (+)	833 bp
Tssr38742	Chr4:119397710-119397732 (+)	863 bp
Tssr38743	Chr4:119401239-119401243 (+)	4,383 bp
Tssr38744	Chr4:119410366-119410370 (+)	13,510 bp
Tssr38745	Chr4:119476476-119476489 (+)	79,625 bp
Tssr38746	Chr4:119476491-119476518 (+)	79,647 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 09/08/2026 MGI 6.24